Zinc in PDB 2x0v: Structure of the P53 Core Domain Mutant Y220C Bound to 4- (Trifluoromethyl)Benzene-1,2-Diamine

The structure of Structure of the P53 Core Domain Mutant Y220C Bound to 4- (Trifluoromethyl)Benzene-1,2-Diamine, PDB code: 2x0v was solved by N.Basse, J.L.Kaar, A.C.Joerger, A.R.Fersht, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	24.03 / 1.80
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	65.226, 71.088, 105.389, 90.00, 90.00, 90.00
R / Rfree (%)	16.2 / 18.9

The structure of Structure of the P53 Core Domain Mutant Y220C Bound to 4- (Trifluoromethyl)Benzene-1,2-Diamine also contains other interesting chemical elements:

Fluorine

(F)

6 atoms

The binding sites of Zinc atom in the Structure of the P53 Core Domain Mutant Y220C Bound to 4- (Trifluoromethyl)Benzene-1,2-Diamine (pdb code 2x0v). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Structure of the P53 Core Domain Mutant Y220C Bound to 4- (Trifluoromethyl)Benzene-1,2-Diamine, PDB code: 2x0v:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Structure of the P53 Core Domain Mutant Y220C Bound to 4- (Trifluoromethyl)Benzene-1,2-Diamine


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Structure of the P53 Core Domain Mutant Y220C Bound to 4- (Trifluoromethyl)Benzene-1,2-Diamine within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1300 b:10.0 occ:1.00 ND1 A:HIS179 2.0 7.5 1.0 SG A:CYS242 2.3 11.8 1.0 SG A:CYS238 2.3 15.0 1.0 SG A:CYS176 2.4 10.1 1.0 CE1 A:HIS179 3.0 9.0 1.0 CG A:HIS179 3.1 9.0 1.0 CB A:CYS242 3.1 12.0 1.0 CB A:HIS179 3.4 8.9 1.0 CB A:CYS176 3.5 10.5 1.0 CB A:CYS238 3.5 16.5 1.0 CA A:CYS238 3.9 10.2 1.0 N A:CYS176 4.0 6.2 1.0 O A:HOH2171 4.1 27.1 1.0 NE2 A:HIS179 4.1 10.7 1.0 CD2 A:HIS179 4.2 12.7 1.0 N A:HIS179 4.3 10.8 1.0 CA A:CYS176 4.3 8.5 1.0 N A:TYR239 4.3 7.2 1.0 CA A:HIS179 4.5 10.0 1.0 CA A:CYS242 4.5 13.1 1.0 C A:CYS238 4.7 9.4 1.0 O A:HOH2156 4.7 13.7 1.0 O A:MET237 4.7 7.4 1.0

Zinc binding site 2 out of 2 in the Structure of the P53 Core Domain Mutant Y220C Bound to 4- (Trifluoromethyl)Benzene-1,2-Diamine


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Structure of the P53 Core Domain Mutant Y220C Bound to 4- (Trifluoromethyl)Benzene-1,2-Diamine within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn1300 b:10.6 occ:1.00 ND1 B:HIS179 2.1 10.8 1.0 SG B:CYS242 2.3 10.9 1.0 SG B:CYS176 2.4 9.3 1.0 SG B:CYS238 2.4 8.6 1.0 CE1 B:HIS179 3.0 11.0 1.0 CB B:CYS242 3.1 10.4 1.0 CG B:HIS179 3.1 10.3 1.0 CB B:CYS238 3.4 13.0 1.0 CB B:CYS176 3.4 8.9 1.0 CB B:HIS179 3.5 9.2 1.0 CA B:CYS238 3.9 8.3 1.0 O B:HOH2159 3.9 29.6 1.0 N B:CYS176 4.0 7.4 1.0 NE2 B:HIS179 4.1 12.0 1.0 CD2 B:HIS179 4.2 14.1 1.0 CA B:CYS176 4.3 9.8 1.0 N B:HIS179 4.4 12.2 1.0 N B:TYR239 4.5 6.4 1.0 CA B:CYS242 4.5 14.9 1.0 CA B:HIS179 4.6 9.8 1.0 O B:MET237 4.6 8.9 1.0 O B:HOH2144 4.7 10.8 1.0 C B:CYS238 4.7 7.7 1.0 C B:CYS176 5.0 11.7 1.0

N.Basse, J.L.Kaar, G.Settanni, A.C.Joerger, T.J.Rutherford, A.R.Fersht. Toward the Rational Design of P53-Stabilizing Drugs: Probing the Surface of the Oncogenic Y220C Mutant. Chem.Biol. V. 17 46 2010.
ISSN: ISSN 1074-5521
PubMed: 20142040
DOI: 10.1016/J.CHEMBIOL.2009.12.011